| Sample_1 | Sample_2 | Sample_3 | Sample_4 | |
|---|---|---|---|---|
| chr1:1:100 | 19 | 24 | 12 | 14 |
| chr2:101:200 | 25 | 23 | 17 | 18 |
| chr1:201:300 | 20 | 27 | 12 | 18 |
| chr2:301:400 | 19 | 25 | 16 | 10 |
| chr2:401:500 | 17 | 27 | 14 | 25 |
| Sample_1 | Sample_2 | Sample_3 | Sample_4 | |
|---|---|---|---|---|
| chr1:1:100 | 19 | 24 | 12 | 14 |
| chr2:101:200 | 25 | 23 | 17 | 18 |
| chr1:201:300 | 20 | 27 | 12 | 18 |
| chr2:301:400 | 19 | 25 | 16 | 10 |
| chr2:401:500 | 17 | 27 | 14 | 25 |
\(x_{i,j}=\frac{WindowCoverage_{i,j}\times10^{9}}{WindowLength_{i}\times{totalReadsSample_{j}}}\)
\(xnorm_{i,j}=\frac{x_{i,j}}{mean(X_{i})}\)
\(x_{i,j}=\frac{WindowCoverage_{i,j}\times10^{9}}{WindowLength_{i}\times{totalReadsSample_{j}}}\)
| Sample_1 | Sample_2 | Sample_3 | Sample_4 | |
|---|---|---|---|---|
| chr1:1:100 | 19 | 24 | 12 | 14 |
| chr2:101:200 | 25 | 23 | 17 | 18 |
| chr1:201:300 | 20 | 27 | 12 | 18 |
| chr2:301:400 | 19 | 25 | 16 | 10 |
| chr2:401:500 | 17 | 27 | 14 | 25 |
| totalReadsSample | 100 | 126 | 71 | 85 |
\(xnorm_{i,j}=\frac{x_{i,j}}{mean(X_{i})}\)
| Sample_1 | Sample_2 | Sample_3 | Sample_4 | Window Mean | |
|---|---|---|---|---|---|
| chr1:1:100 | 1,919,192 | 1,924,002 | 1,707,213 | 1,663,696 | 1,803,526 |
| chr2:101:200 | 2,525,253 | 1,843,835 | 2,418,552 | 2,139,037 | 2,231,669 |
| chr1:201:300 | 2,020,202 | 2,164,502 | 1,707,213 | 2,139,037 | 2,007,739 |
| chr2:301:400 | 1,919,192 | 2,004,169 | 2,276,284 | 1,188,354 | 1,847,000 |
| chr2:401:500 | 1,717,172 | 2,164,502 | 1,991,748 | 2,970,885 | 2,211,077 |
| Sample_1 | Sample_2 | Sample_3 | Sample_4 | |
|---|---|---|---|---|
| chr1:1:100 | 1.06 | 1.07 | 0.95 | 0.92 |
| chr2:101:200 | 1.13 | 0.83 | 1.08 | 0.96 |
| chr1:201:300 | 1.01 | 1.08 | 0.85 | 1.07 |
| chr2:301:400 | 1.04 | 1.09 | 1.23 | 0.64 |
| chr2:401:500 | 0.78 | 0.98 | 0.90 | 1.34 |
5 out of 823 lines are noisy (\(\sigma > 0.45\)).
| line | SD |
|---|---|
| WATDE0009 | 0.75 |
| WATDE0039 | 1.08 |
| WATDE0056 | 0.51 |
| WATDE0060 | 0.52 |
| WATDE0090 | 0.50 |
Outline represents \(1\pm2.5\sigma\)
Regular line (\(\sigma<0.45\))
Noisy line (\(\sigma > 0.45\))
There are 43,412,060 CNV events across 823 lines
22,294,613 (51.36 %) are not singletons